Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

DNA Microarrays02:34

DNA Microarrays

Microarrays are high-throughput and relatively inexpensive assays that can be automated to analyze large quantities of data at a time. They are used in genome-wide studies to compare gene or protein expression under two varied conditions, such as healthy and diseased states. Microarrays consist of glass or silica slides on which probe molecules are covalently attached through surface functionalization. Most commonly, the slides are prepared through the chemisorption of silanes to silica...

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Tension in transverse structures in women with pelvic organ prolapse - Preliminary observations.

Women's health (London, England)·2026
Same author

CAG-targeting artificial miRNA with reduced off-target risk for efficient lowering of pathogenic polyglutamine proteins.

NAR molecular medicine·2026
Same author

Genetic genealogy of the Piast dynasty and related European royal families.

Nature communications·2026
Same author

Dynamics and consequences of differential RNA isoform production during cardiomyocyte fate determination and early-stage maturation.

Genome research·2026
Same author

Genotype-based prevalence of Birt-Hogg-Dubé syndrome in the healthcare and genomic registry populations - breaking the 'rare disease' status?

NPJ genomic medicine·2026
Same author

Genomic characterization of resistant and relapsed adult B-cell acute lymphoblastic leukemia.

Journal of applied genetics·2026

Related Experiment Video

Updated: May 26, 2026

Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer
08:20

Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer

Published on: May 21, 2019

Impact of DNA microarray data transformation on gene expression analysis - comparison of two normalization methods.

Marcin T Schmidt1, Luiza Handschuh, Joanna Zyprych

  • 1Department of Biotechnology and Food Microbiology, Poznan University of Life Sciences, Poznań, Poland. mschmidt@up.poznan.pl

Acta Biochimica Polonica
|December 22, 2011
PubMed
Summary

Choosing the right normalization method is crucial for DNA microarray analysis. Median normalization yields consistent results, while loess normalization can produce contradictory gene expression data.

More Related Videos

Mapping the Structure-Function Relationships of Disordered Oncogenic Transcription Factors Using Transcriptomic Analysis
09:58

Mapping the Structure-Function Relationships of Disordered Oncogenic Transcription Factors Using Transcriptomic Analysis

Published on: June 27, 2020

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning
09:27

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning

Published on: March 15, 2011

Related Experiment Videos

Last Updated: May 26, 2026

Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer
08:20

Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer

Published on: May 21, 2019

Mapping the Structure-Function Relationships of Disordered Oncogenic Transcription Factors Using Transcriptomic Analysis
09:58

Mapping the Structure-Function Relationships of Disordered Oncogenic Transcription Factors Using Transcriptomic Analysis

Published on: June 27, 2020

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning
09:27

DNA Microarrays: Sample Quality Control, Array Hybridization and Scanning

Published on: March 15, 2011

Area of Science:

  • Genomics
  • Bioinformatics

Background:

  • Two-color DNA microarrays are widely used for global gene expression analysis.
  • Normalization is essential to minimize systematic variations and identify true biological differences in microarray data.

Purpose of the Study:

  • To compare the impact of two normalization methods (median and loess) on DNA microarray data analysis.
  • To evaluate the consistency of results obtained from different software packages.

Main Methods:

  • Applied median and loess normalization methods using two distinct microarray data analysis software packages.
  • Examined a sample dataset to assess the performance of each normalization technique.

Main Results:

  • The number of differentially expressed genes identified varied significantly based on the normalization method used.
  • Median normalization resulted in consistent lists of differentially expressed genes across software.
  • Loess normalization produced less coherent and sometimes contradictory results, particularly for specific probes.

Conclusions:

  • Normalization methods profoundly influence DNA microarray analysis outcomes.
  • The choice of normalization algorithm significantly impacts the reliability and consistency of gene expression data.
  • Careful consideration and optimization of normalization procedures are necessary for each unique dataset.